Figure 5

Inference of differential preferences on simulated data. To illustrate and test the inference of differential preferences, the experiment in Figure 1B was simulated at the codon level starting with the post-selection library that yielded the preferences in Figure 2. In the simulations, 20% of sites had different preferences between the control and alternative selection. (A), dms_tools was used to infer the differential preferences from the data simulated at N=10⁷, and the resulting inferences were visualized. The overlay bars indicate which sites had non-zero differential preferences in the simulation. (B) The correlations between the inferred and actual differential preferences as a function of \(N\overline {\mu }\) show that the inferred values converge to the true ones. Given files with the mutation counts, the plots in this figure can be generated as logoplot.pdf and corr.pdf with the following commands:.